Improving Our Understanding of Environmental Controls on the Distribution of C3 and C4 Grasses STEPHANIE PAU*, ERIKA J
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A Phylogeny of the Hubbardochloinae Including Tetrachaete (Poaceae: Chloridoideae: Cynodonteae)
Peterson, P.M., K. Romaschenko, and Y. Herrera Arrieta. 2020. A phylogeny of the Hubbardochloinae including Tetrachaete (Poaceae: Chloridoideae: Cynodonteae). Phytoneuron 2020-81: 1–13. Published 18 November 2020. ISSN 2153 733 A PHYLOGENY OF THE HUBBARDOCHLOINAE INCLUDING TETRACHAETE (CYNODONTEAE: CHLORIDOIDEAE: POACEAE) PAUL M. PETERSON AND KONSTANTIN ROMASCHENKO Department of Botany National Museum of Natural History Smithsonian Institution Washington, D.C. 20013-7012 [email protected]; [email protected] YOLANDA HERRERA ARRIETA Instituto Politécnico Nacional CIIDIR Unidad Durango-COFAA Durango, C.P. 34220, México [email protected] ABSTRACT The phylogeny of subtribe Hubbardochloinae is revisited, here with the inclusion of the monotypic genus Tetrachaete, based on a molecular DNA analysis using ndhA intron, rpl32-trnL, rps16 intron, rps16- trnK, and ITS markers. Tetrachaete elionuroides is aligned within the Hubbardochloinae and is sister to Dignathia. The biogeography of the Hubbardochloinae is discussed, its origin likely in Africa or temperate Asia. In a previous molecular DNA phylogeny (Peterson et al. 2016), the subtribe Hubbardochloinae Auquier [Bewsia Gooss., Dignathia Stapf, Gymnopogon P. Beauv., Hubbardochloa Auquier, Leptocarydion Hochst. ex Stapf, Leptothrium Kunth, and Lophacme Stapf] was found in a clade with moderate support (BS = 75, PP = 1.00) sister to the Farragininae P.M. Peterson et al. In the present study, Tetrachaete elionuroides Chiov. is included in a phylogenetic analysis (using ndhA intron, rpl32- trnL, rps16 intron, rps16-trnK, and ITS DNA markers) in order to test its relationships within the Cynodonteae with heavy sampling of species in the supersubtribe Gouiniodinae P.M. Peterson & Romasch. Chiovenda (1903) described Tetrachaete Chiov. with a with single species, T. -
Chapter 5 Phylogeny of Poaceae Based on Matk Gene Sequences
Chapter 5 Phylogeny of Poaceae Based on matK Gene Sequences 5.1 Introduction Phylogenetic reconstruction in the Poaceae began early in this century with proposed evolutionary hypotheses based on assessment of existing knowledge of grasses (e.g., Bew, 1929; Hubbard 1948; Prat, 1960; Stebbins, 1956, 1982; Clayton, 1981; Tsvelev, 1983). Imperical approaches to phylogenetic reconstruction of the Poaceae followed those initial hypotheses, starting with cladistic analyses of morphological and anatomical characters (Kellogg and Campbell, 1987; Baum, 1987; Kellogg and Watson, 1993). More recently, molecular information has provided the basis for phylogenetic hypotheses in grasses at the subfamily and tribe levels (Table 5.1). These molecular studies were based on information from chloroplast DNA (cpDNA) restriction sites and DNA sequencing of the rbcL, ndhF, rps4, 18S and 26S ribosomal DNA (rDNA), phytochrome genes, and the ITS region (Hamby and Zimmer, 1988; Doebley et al., 1990; Davis and Soreng, 1993; Cummings, King, and Kellogg, 1994; Hsiao et al., 1994; Nadot, Bajon, and Lejeune, 1994; Barker, Linder, and Harley, 1995; Clark, Zhang, and Wendel, 1995; Duvall and Morton, 1996; Liang and Hilu, 1996; Mathews and Sharrock, 1996). Although these studies have refined our concept of grass evolution at the subfamily level and, to a certain degree, at the tribal level, major disagreements and questions remain to be addressed. Outstanding discrepancies at the subfamily level include: 1) Are the pooids, bambusoids senso lato, or herbaceous bamboos the -
Ornamental Grasses for the Midsouth Landscape
Ornamental Grasses for the Midsouth Landscape Ornamental grasses with their variety of form, may seem similar, grasses vary greatly, ranging from cool color, texture, and size add diversity and dimension to season to warm season grasses, from woody to herbaceous, a landscape. Not many other groups of plants can boast and from annuals to long-lived perennials. attractiveness during practically all seasons. The only time This variation has resulted in five recognized they could be considered not to contribute to the beauty of subfamilies within Poaceae. They are Arundinoideae, the landscape is the few weeks in the early spring between a unique mix of woody and herbaceous grass species; cutting back the old growth of the warm-season grasses Bambusoideae, the bamboos; Chloridoideae, warm- until the sprouting of new growth. From their emergence season herbaceous grasses; Panicoideae, also warm-season in the spring through winter, warm-season ornamental herbaceous grasses; and Pooideae, a cool-season subfamily. grasses add drama, grace, and motion to the landscape Their habitats also vary. Grasses are found across the unlike any other plants. globe, including in Antarctica. They have a strong presence One of the unique and desirable contributions in prairies, like those in the Great Plains, and savannas, like ornamental grasses make to the landscape is their sound. those in southern Africa. It is important to recognize these Anyone who has ever been in a pine forest on a windy day natural characteristics when using grasses for ornament, is aware of the ethereal music of wind against pine foliage. since they determine adaptability and management within The effect varies with the strength of the wind and the a landscape or region, as well as invasive potential. -
Phylogenetic Analyses Reveal the Shady History of C4 Grasses Erika J
Phylogenetic analyses reveal the shady history of C4 grasses Erika J. Edwardsa,1 and Stephen A. Smithb aDepartment of Ecology and Evolutionary Biology, Brown University, Providence, RI 02912; and bNational Evolutionary Synthesis Center, Durham, NC 27705 Edited by Michael J. Donoghue, Yale University, New Haven, CT, and approved December 31, 2009 (received for review August 24, 2009) Grasslands cover more than 20% of the Earth's terrestrial surface, has provided a strong selection pressure for C4 evolution in and their rise to dominance is one of the most dramatic events of eudicots (4). Grasses have long been viewed as an interesting biome evolution in Earth history. Grasses possess two main photo- exception to this pattern (9). Significant positive correlations synthetic pathways: the C3 pathway that is typical of most plants between C4 grass abundance and growing season temperature and a specialized C4 pathway that minimizes photorespiration and have been documented at both continental and regional scales thus increases photosynthetic performance in high-temperature (10–13); C4 grasses dominate tropical grasslands and savannas and/or low-CO2 environments. C4 grasses dominate tropical and but are virtually absent from cool-temperate grasslands and subtropical grasslands and savannas, and C3 grasses dominate the steppes. Furthermore, both experimental measurements of world's cooler temperate grassland regions. This striking pattern photosynthetic light use efficiency (termed “quantum yield”), has been attributed to C4 physiology, with the implication that the and predictions of leaf models of C3 and C4 photosynthesis evolution of the pathway enabled C4 grasses to persist in warmer provide strong evidence that C4 grasses outperform C3 grasses at climates than their C3 relatives. -
Poaceae: Panicoideae: Paniceae) Silvia S
Aliso: A Journal of Systematic and Evolutionary Botany Volume 23 | Issue 1 Article 41 2007 Phylogenetic Relationships of the Decumbentes Group of Paspalum, Thrasya, and Thrasyopsis (Poaceae: Panicoideae: Paniceae) Silvia S. Denham Instituto de Botánica Darwinion, San Isidro, Argentina Fernando O. Zuloaga Instituto de Botánica Darwinion, San Isidro, Argentina Follow this and additional works at: http://scholarship.claremont.edu/aliso Part of the Botany Commons, and the Ecology and Evolutionary Biology Commons Recommended Citation Denham, Silvia S. and Zuloaga, Fernando O. (2007) "Phylogenetic Relationships of the Decumbentes Group of Paspalum, Thrasya, and Thrasyopsis (Poaceae: Panicoideae: Paniceae)," Aliso: A Journal of Systematic and Evolutionary Botany: Vol. 23: Iss. 1, Article 41. Available at: http://scholarship.claremont.edu/aliso/vol23/iss1/41 Aliso 23, pp. 545–562 ᭧ 2007, Rancho Santa Ana Botanic Garden PHYLOGENETIC RELATIONSHIPS OF THE DECUMBENTES GROUP OF PASPALUM, THRASYA, AND THRASYOPSIS (POACEAE: PANICOIDEAE: PANICEAE) SILVIA S. DENHAM1 AND FERNANDO O. ZULOAGA Instituto de Bota´nica Darwinion, Labarde´n 200, Casilla de Correo 22, San Isidro, Buenos Aires B1642HYD, Argentina 1Corresponding author ([email protected]) ABSTRACT Paspalum (Poaceae: Panicoideae: Paniceae) includes 330 species distributed mainly in tropical and subtropical regions of America. Due to the large number of species and convergence in many char- acters, an adequate infrageneric classification is still needed. Studies on Paniceae based on molecular and morphological data have suggested that Paspalum is paraphyletic, including the genus Thrasya, but none of these analyses have included a representative sample of these two genera. In this study, phylogenetic relationships among the informal group Decumbentes of Paspalum, plus subgenera and other informal groups, and the genera Thrasya and Thrasyopsis were estimated. -
A Phylogenomic Assessment of Ancient Polyploidy and Genome Evolution Across the Poales
GBE A Phylogenomic Assessment of Ancient Polyploidy and Genome Evolution across the Poales Michael R. McKain1,2,*, Haibao Tang3,4,JoelR.McNeal5,2, Saravanaraj Ayyampalayam2, Jerrold I. Davis6, Claude W. dePamphilis7, Thomas J. Givnish8,J.ChrisPires9, Dennis Wm. Stevenson10,and James H. Leebens-Mack2 1Donald Danforth Plant Science Center, St. Louis, Missouri Downloaded from https://academic.oup.com/gbe/article-abstract/8/4/1150/2574085 by guest on 17 January 2019 2Department of Plant Biology, University of Georgia 3Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, Fujian Province, China 4School of Plant Sciences, iPlant Collaborative, University of Arizona 5Department of Ecology, Evolution, and Organismal Biology, Kennesaw State University 6L. H. Bailey Hortorium and Department of Plant Biology, Cornell University 7Department of Biology and Institute of Molecular Evolutionary Genetics, Pennsylvania State University, University Park, Pennsylvania 8Department of Botany, University of Wisconsin-Madison 9Division of Biological Sciences, University of Missouri, Columbia 10New York Botanical Garden, Bronx, New York *Corresponding author: E-mail: [email protected]. Accepted: March 7, 2016 Data deposition: Alignments, trees, and analyses for this project have been deposited at Dryad under the accession doi:10.5061/dryad.305s0. DNA sequences have been deposited at GenBank under the accession PRJNA313089. Abstract Comparisons of flowering plant genomes reveal multiple rounds of ancient polyploidy characterized by large intragenomic syntenic blocks. Three such whole-genome duplication (WGD) events, designated as rho (r), sigma (s), and tau (t), have been identified in the genomes of cereal grasses. Precise dating of these WGD events is necessary to investigate how they have influenced diversification rates, evolutionary innovations, and genomic characteristics such as the GC profile of protein-coding sequences. -
On the Taxonomic Position of Panicum Scabridum (Poaceae, Panicoideae, Paspaleae)
Phytotaxa 163 (1): 001–015 ISSN 1179-3155 (print edition) www.mapress.com/phytotaxa/ Article PHYTOTAXA Copyright © 2014 Magnolia Press ISSN 1179-3163 (online edition) http://dx.doi.org/10.11646/phytotaxa.163.1.1 On the taxonomic position of Panicum scabridum (Poaceae, Panicoideae, Paspaleae) M. AMALIA SCATAGLINI1,2, SANDRA ALISCIONI1 & FERNANDO O. ZULOAGA1 1Instituto de Botánica Darwinion, Labardén 200, Casilla de Correo 22, B1642HYD, San Isidro, Buenos Aires, Argentina. 2Author for correspondence: [email protected] Abstract Panicum scabridum, an incertae sedis species of Panicum s.l., is here included in the genus Coleataenia, following a phylogenetic analysis based on one new ndhF sequence of the species and associated morphological data. Panicum scabridum and species of Coleataenia are cespitose and perennial plants, with a lower glume (1–)3–5-nerved, 1/3 to 3/4 of the spikelet, upper glume and lower lemma 5–9-nerved, and upper anthecium smooth, shiny, and indurate. Within Coleataenia, P. scabridum appeared as the sister taxon of the species pair C. prionitis and C. petersonii; these three species are the only NADP-me taxa of tribe Paspaleae exhibiting two bundle sheaths around the vascular bundles, i.e., with an outer parenchymatous sheath and an inner mestome sheath with specialized chloroplasts. The new combination Coleataenia scabrida is proposed and a lectotype is designated. Key words: Panicum scabridum, phylogeny, combined analysis, anatomy Introduction Panicum scabridum Döll (1877: 201), originally described from a specimen collected in Brazil, grows in Colombia, Venezuela and the Guianas to northern Brazil and Bolivia, in wet open places at low elevations. -
Population Structure and Diversity in Finger Millet ( Eleusine Coracana ) Germplasm
See discussions, stats, and author profiles for this publication at: https://www.researchgate.net/publication/225706765 Population Structure and Diversity in Finger Millet ( Eleusine coracana ) Germplasm Article in Tropical Plant Biology · January 2008 DOI: 10.1007/s12042-008-9012-3 CITATIONS READS 86 816 5 authors, including: Mathews Dida Katrien Devos University of Georgia 34 PUBLICATIONS 389 CITATIONS 109 PUBLICATIONS 3,688 CITATIONS SEE PROFILE SEE PROFILE Some of the authors of this publication are also working on these related projects: Parallel loss of introns in ABCB1 View project GBS Bioinformatics pipeline View project All content following this page was uploaded by Mathews Dida on 29 June 2016. The user has requested enhancement of the downloaded file. Tropical Plant Biol. (2008) 1:131–141 DOI 10.1007/s12042-008-9012-3 Population Structure and Diversity in Finger Millet (Eleusine coracana) Germplasm Mathews M. Dida & Nelson Wanyera & Melanie L. Harrison Dunn & Jeffrey L. Bennetzen & Katrien M. Devos Received: 30 March 2008 /Accepted: 29 April 2008 /Published online: 18 June 2008 # Springer Science + Business Media, LLC 2008 Abstract A genotypic analysis of 79 finger millet acces- seen between the African wild and cultivated subpopula- sions (E. coracana subsp. coracana) from 11 African and tions, indicating that hybridizations among subspecies five Asian countries, plus 14 wild E. coracana subsp. occur naturally where both species are sympatric. The africana lines collected in Uganda and Kenya was genotyping, combined with phylogenetic and population conducted with 45 SSR markers distributed across the structure analyses proved to be very powerful in predicting finger millet genome. Phylogenetic and population structure the origin of breeding materials. -
(Poaceae: Panicoideae) in Thailand
Systematics of Arundinelleae and Andropogoneae, subtribes Chionachninae, Dimeriinae and Germainiinae (Poaceae: Panicoideae) in Thailand Thesis submitted to the University of Dublin, Trinity College for the Degree of Doctor of Philosophy (Ph.D.) by Atchara Teerawatananon 2009 Research conducted under the supervision of Dr. Trevor R. Hodkinson School of Natural Sciences Department of Botany Trinity College University of Dublin, Ireland I Declaration I hereby declare that the contents of this thesis are entirely my own work (except where otherwise stated) and that it has not been previously submitted as an exercise for a degree to this or any other university. I agree that library of the University of Dublin, Trinity College may lend or copy this thesis subject to the source being acknowledged. _______________________ Atchara Teerawatananon II Abstract This thesis has provided a comprehensive taxonomic account of tribe Arundinelleae, and subtribes Chionachninae, Dimeriinae and Germainiinae of the tribe Andropogoneae in Thailand. Complete floristic treatments of these taxa have been completed for the Flora of Thailand project. Keys to genera and species, species descriptions, synonyms, typifications, illustrations, distribution maps and lists of specimens examined, are also presented. Fourteen species and three genera of tribe Arundinelleae, three species and two genera of subtribe Chionachninae, seven species of subtribe Dimeriinae, and twelve species and two genera of Germainiinae, were recorded in Thailand, of which Garnotia ciliata and Jansenella griffithiana were recorded for the first time for Thailand. Three endemic grasses, Arundinella kerrii, A. kokutensis and Dimeria kerrii were described as new species to science. Phylogenetic relationships among major subfamilies in Poaceae and among major tribes within Panicoideae were evaluated using parsimony analysis of plastid DNA regions, trnL-F and atpB- rbcL, and a nuclear ribosomal DNA region, ITS. -
Investigation of Mitochondrial-Derived Plastome Sequences in the Paspalum Lineage (Panicoideae; Poaceae) Sean V
Burke et al. BMC Plant Biology (2018) 18:152 https://doi.org/10.1186/s12870-018-1379-1 RESEARCH ARTICLE Open Access Investigation of mitochondrial-derived plastome sequences in the Paspalum lineage (Panicoideae; Poaceae) Sean V. Burke1* , Mark C. Ungerer2 and Melvin R. Duvall1 Abstract Background: The grass family (Poaceae), ca. 12,075 species, is a focal point of many recent studies that aim to use complete plastomes to reveal and strengthen relationships within the family. The use of Next Generation Sequencing technology has revealed intricate details in many Poaceae plastomes; specifically the trnI - trnL intergenic spacer region. This study investigates this region and the putative mitochondrial inserts within it in complete plastomes of Paspalum and other Poaceae. Results: Nine newly sequenced plastomes, seven of which contain an insert within the trnI - trnL intergenic spacer, were combined into plastome phylogenomic and divergence date analyses with 52 other species. A robust Paspalum topology was recovered, originating at 10.6 Ma, with the insert arising at 8.7 Ma. The alignment of the insert across Paspalum reveals 21 subregions with pairwise homology in 19. In an analysis of emergent self- organizing maps of tetranucleotide frequencies, the Paspalum insert grouped with mitochondrial DNA. Conclusions: A hypothetical ancestral insert, 17,685 bp in size, was found in the trnI - trnL intergenic spacer for the Paspalum lineage. A different insert, 2808 bp, was found in the same region for Paraneurachne muelleri. Seven different intrastrand deletion events were found within the Paspalum lineage, suggesting selective pressures to remove large portions of noncoding DNA. Finally, a tetranucleotide frequency analysis was used to determine that the origin of the insert in the Paspalum lineage is mitochondrial DNA. -
Insights in the Evolution of Neotropical Bamboos
Bol.Soc.Bot.Méx. 88:67-75 (2011) BIOGEOGRAFÍA BIOGEOGRAPHY AND DIVERGENCE TIME ESTIMATES OF WOODY BAMBOOS: INSIGHTS IN THE EVOLUTION OF NEOTROPICAL BAMBOOS EDUARDO RUIZ-SANCHEZ Instituto de Ecología, A. C. Actual adcription: University of California, Berkeley email: [email protected] Abstract: The Neotropical woody bamboos are a monophyletic lineage with three subtribes in the Bambusoideae: Arthrostyli- diinae, Chusqueinae and Guaduainae. The geographical distribution of these subtribes extends from Mexico, Central America, Caribbean Islands, to South America. In order to understand the biogeographical patterns and origin of these bamboos, a phy- logeny of Neotropical woody bamboos was first inferred. Then divergence time estimation of particular nodes using a Bayesian approach and ancestral area reconstruction using S-DIVA were performed. The results suggest a Miocene origin of Neotropical bamboos where the subtribe Chusqueinae was the oldest, followed by the Arthrostylidiinae and the Guaduinae. The ancestral area reconstruction indicated a complex scenario in which the ancestral area for Chusqueinae was Andean South America followed by multiple dispersal events to Atlantic Brazil and Mesoamerica. Overall, the results support the hypothesis of a South American ori- gin of the Neotropical woody bamboos, corroborated by the molecular dating, ancestral area reconstruction and the fossil record. Keywords: Andes, Atlantic forests, Mesoamerica, Neotropical woody bamboos, South America. Resumen: Los bambúes leñosos Neotropicales son un linaje monofilético dentro de Bambusoideae con tres subtribus: Arthro- stylidiinae, Chusqueinae y Guaduinae. La distribución geográfica de éstas va desde México, Centroamérica, Islas del Caribe hasta Sudamérica. Para entender los patrones biogeográficos y el origen de estos bambúes se realizó un análisis filogenético. -
The C4 Plant Lineages of Planet Earth
Journal of Experimental Botany, Vol. 62, No. 9, pp. 3155–3169, 2011 doi:10.1093/jxb/err048 Advance Access publication 16 March, 2011 REVIEW PAPER The C4 plant lineages of planet Earth Rowan F. Sage1,*, Pascal-Antoine Christin2 and Erika J. Edwards2 1 Department of Ecology and Evolutionary Biology, The University of Toronto, 25 Willcocks Street, Toronto, Ontario M5S3B2 Canada 2 Department of Ecology and Evolutionary Biology, Brown University, 80 Waterman St., Providence, RI 02912, USA * To whom correspondence should be addressed. E-mail: [email protected] Received 30 November 2010; Revised 1 February 2011; Accepted 2 February 2011 Abstract Using isotopic screens, phylogenetic assessments, and 45 years of physiological data, it is now possible to identify most of the evolutionary lineages expressing the C4 photosynthetic pathway. Here, 62 recognizable lineages of C4 photosynthesis are listed. Thirty-six lineages (60%) occur in the eudicots. Monocots account for 26 lineages, with a Downloaded from minimum of 18 lineages being present in the grass family and six in the sedge family. Species exhibiting the C3–C4 intermediate type of photosynthesis correspond to 21 lineages. Of these, 9 are not immediately associated with any C4 lineage, indicating that they did not share common C3–C4 ancestors with C4 species and are instead an independent line. The geographic centre of origin for 47 of the lineages could be estimated. These centres tend to jxb.oxfordjournals.org cluster in areas corresponding to what are now arid to semi-arid regions of southwestern North America, south- central South America, central Asia, northeastern and southern Africa, and inland Australia.